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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ), 'gf_id' => 'HOM05D001051', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001051' ), 'data_identifier' => 'HOM05D001051', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001051', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '579', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p03260' => 'bna', 'A02p08330' => 'bna', 'A03p32910' => 'bna', 'A04p19170' => 'bna', 'A06p35720' => 'bna', 'A09p06350' => 'bna', 'A10p15070' => 'bna', 'A10p23160' => 'bna', 'A10p23170' => 'bna', 'Aa31LG11G13740' => 'aar', 'Aa31LG11G4130' => 'aar', 'Aa31LG3G13500' => 'aar', 'Aa31LG5G12910' => 'aar', 'Aa31sc359G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4182' => 'aag', 'Actinidia04119' => 'ach', 'Actinidia06448' => 'ach', 'Actinidia17616' => 'ach', 'Actinidia18963' => 'ach', 'Actinidia22273' => 'ach', 'Actinidia24539' => 'ach', 'Actinidia26281' => 'ach', 'Ah.09g229710' => 'amhyb', 'Ah.10g038430' => 'amhyb', 'Ah.14g083980' => 'amhyb', 'Ah.16g100740' => 'amhyb', 'AL3G11680' => 'aly', 'AL4G15780' => 'aly', 'AL6G26710' => 'aly', 'AL6G26730' => 'aly', 'AL6G36600' => 'aly', 'AL8G33690' => 'aly', 'Aqoxy3G03799' => 'aox', 'Aqoxy7G03177' => 'aox', 'arahy.Tifrunner.gnm1.ann1.669CET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6J3MKV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B9QMIW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E7IDF3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E88P3Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GMWG2V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LV381L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S3IANQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ZS9VWH' => 'arhy', 'AT2G24790' => 'ath', 'AT3G02380' => 'ath', 'AT5G15840' => 'ath', 'AT5G15850' => 'ath', 'AT5G24930' => 'ath', 'AT5G57660' => 'ath', 'ATR0057G057' => 'atr', 'ATR0580G367' => 'atr', 'ATR0691G129' => 'atr', 'Atru.chr7.2602' => 'acertr', 'Atru.chr7.580' => 'acertr', 'Atru.chr8.713' => 'acertr', 'AUR62009440' => 'cqu', 'AUR62020307' => 'cqu', 'AUR62023118' => 'cqu', 'AUR62035217' => 'cqu', 'AUR62039984' => 'cqu', 'AUR62040293' => 'cqu', 'BcaB01g05018' => 'bca', 'BcaB04g19806' => 'bca', 'BcaB05g22358' => 'bca', 'BcaB06g28010' => 'bca', 'BcaB08g36124' => 'bca', 'BcaB08g36865' => 'bca', 'BcaB08g36866' => 'bca', 'BcaC01g04449' => 'bca', 'BcaC01g04550' => 'bca', 'BcaC01g05639' => 'bca', 'BcaC02g08411' => 'bca', 'BcaC03g14135' => 'bca', 'BcaC03g18455' => 'bca', 'BcaC04g18923' => 'bca', 'BcaC04g18929' => 'bca', 'BcaC04g18930' => 'bca', 'BcaC04g19939' => 'bca', 'BcaC04g23566' => 'bca', 'BcaC06g36189' => 'bca', 'BcaC09g47697' => 'bca', 'BNapus_Darmor_BZH_scaffold_208p00090' => 'bna', 'BNapus_Darmor_BZH_scaffold_241p00080' => 'bna', 'BolC1t05908H' => 'bol', 'BolC2t06724H' => 'bol', 'BolC2t07525H' => 'bol', 'BolC3t16269H' => 'bol', 'BolC4t26998H' => 'bol', 'BolC7t44810H' => 'bol', 'BolC9t53620H' => 'bol', 'BolC9t57809H' => 'bol', 'BolC9t58955H' => 'bol', 'BolC9t58962H' => 'bol', 'BolC9t58963H' => 'bol', 'BraA02t05297Z' => 'bra', 'BraA02t05903Z' => 'bra', 'BraA03t12460Z' => 'bra', 'BraA04t17518Z' => 'bra', 'BraA06t26496Z' => 'bra', 'BraA09t36280Z' => 'bra', 'BraA10t43589Z' => 'bra', 'BraA10t44385Z' => 'bra', 'BraA10t44386Z' => 'bra', 'BraSC141t45624Z' => 'bra', 'C02p08020' => 'bna', 'C02p14050' => 'bna', 'C03p23770' => 'bna', 'C03p40040' => 'bna', 'C04p54550' => 'bna', 'C07p42820' => 'bna', 'C09p07040' => 'bna', 'C09p49560' => 'bna', 'C09p61120' => 'bna', 'C09p61210' => 'bna', 'C09p61220' => 'bna', 'CAN.G396.8' => 'can', 'CAN.G497.32' => 'can', 'CAN.G497.33' => 'can', 'CAN.G497.34' => 'can', 'CAN.G566.55' => 'can', 'CAN.G584.26' => 'can', 'CANSAT11G0444' => 'cansat', 'CANSAT25G0698' => 'cansat', 'CANSAT64G2651' => 'cansat', 'CARHR076360' => 'chi', 'CARHR188510' => 'chi', 'CARHR197460' => 'chi', 'CARHR197470' => 'chi', 'CARHR197480' => 'chi', 'CARHR271420' => 'chi', 'CARHR294540' => 'chi', 'Carub.0003s0148' => 'cru', 'Carub.0004s0442' => 'cru', 'Carub.0006s1400' => 'cru', 'Carub.0006s1401' => 'cru', 'Carub.0006s2280' => 'cru', 'Carub.0008s1817' => 'cru', 'Ca_06707_v3' => 'car', 'Ca_13079_v3' => 'car', 'Ca_15793_v3' => 'car', 'Ca_21196_v3' => 'car', 'CBR_g57652' => 'cbr', 'Cc06_g13690' => 'ccan', 'Cc07_g04750' => 'ccan', 'Cc08_g06390' => 'ccan', 'CDE01G0714' => 'cde', 'CDE02G1963' => 'cde', 'CDE02G3092' => 'cde', 'CDE02G4019' => 'cde', 'CDE04G0101' => 'cde', 'CDE04G0770' => 'cde', 'CDE04G3461' => 'cde', 'CDE07G0347' => 'cde', 'Cfa013008' => 'cfa', 'Cfa013529' => 'cfa', 'Ciclev10008366m.g' => 'ccl', 'Ciclev10008813m.g' => 'ccl', 'Ciclev10012022m.g' => 'ccl', 'Ciclev10020722m.g' => 'ccl', 'CiPaw.03G007900' => 'cil', 'CiPaw.04G006100' => 'cil', 'CiPaw.07G188700' => 'cil', 'CiPaw.07G233300' => 'cil', 'CiPaw.08G004200' => 'cil', 'ClCG06G013080' => 'cla', 'ClCG07G016220' => 'cla', 'ClCG08G013860' => 'cla', 'ClCG11G012300' => 'cla', 'COL.COLO4_07847' => 'col', 'COL.COLO4_18994' => 'col', 'COL.COLO4_34123' => 'col', 'Cpa.g.sc1332.1' => 'cpa', 'Cpa.g.sc189.24' => 'cpa', 'Cpa.g.sc70.6' => 'cpa', 'Cpa.g.sc95.76' => 'cpa', 'Cre03.g182700' => 'cre', 'Cre06.g278159' => 'cre', 'Cre12.g534100' => 'cre', 'Cre16.g675100' => 'cre', 'CsaV3_1G031230' => 'csa', 'CsaV3_2G008220' => 'csa', 'CsaV3_2G032640' => 'csa', 'CsaV3_4G009980' => 'csa', 'CSS0012978' => 'camsi', 'CSS0018089' => 'camsi', 'CSS0037269' => 'camsi', 'CSS0040205' => 'camsi', 'CSS0041853' => 'camsi', 'DCAR_001708' => 'dca', 'DCAR_001835' => 'dca', 'DCAR_003040' => 'dca', 'DCAR_007535' => 'dca', 'DCAR_007537' => 'dca', 'DCAR_009909' => 'dca', 'DCAR_020110' => 'dca', 'DCAR_026289' => 'dca', 'Dinv23726' => 'din', 'Dinv33889' => 'din', 'Dinv33987' => 'din', 'Dinv34882' => 'din', 'Dinv41284' => 'din', 'Dinv42762' => 'din', 'Dinv43340' => 'din', 'Duzib084G0623' => 'dzi', 'Duzib138G1635' => 'dzi', 'Duzib150G0335' => 'dzi', 'Duzib150G0939' => 'dzi', 'Duzib168G1474' => 'dzi', 'Duzib168G1827' => 'dzi', 'Duzib170G0155' => 'dzi', 'Duzib187G0898' => 'dzi', 'Duzib201G0001' => 'dzi', 'Duzib205G2060' => 'dzi', 'Duzib211G0154' => 'dzi', 'ECA232G0380' => 'eca', 'ECA234G3161' => 'eca', 'ECA236G1158' => 'eca', 'ECA238G0983' => 'eca', 'ECA240G1741' => 'eca', 'ECA246G0039' => 'eca', 'EL10Ac2g02435' => 'bvu', 'EL10Ac2g04397' => 'bvu', 'EL10Ac8g18260' => 'bvu', 'Eucgr.C01876' => 'egr', 'Eucgr.I02094' => 'egr', 'Eucgr.K02636' => 'egr', 'FAN02G1551' => 'fan', 'FAN05G2795' => 'fan', 'FAN07G2068' => 'fan', 'FAN09G3964' => 'fan', 'FAN12G2915' => 'fan', 'FAN14G3999' => 'fan', 'FAN15G2836' => 'fan', 'FAN17G2373' => 'fan', 'FAN22G1203' => 'fan', 'FAN27G0994' => 'fan', 'FvH4_2g41420' => 'fve', 'FvH4_4g08980' => 'fve', 'FvH4_6g45860' => 'fve', 'Glyma.04G058900' => 'gma', 'Glyma.06G059600' => 'gma', 'Glyma.08G255200' => 'gma', 'Glyma.13G050300' => 'gma', 'Glyma.13G093800' => 'gma', 'Glyma.17G066600' => 'gma', 'Glyma.18G278100' => 'gma', 'Glyma.19G039000' => 'gma', 'Gohir.A03G073100' => 'ghi', 'Gohir.A05G062400' => 'ghi', 'Gohir.A07G034300' => 'ghi', 'Gohir.A08G022000' => 'ghi', 'Gohir.A08G086800' => 'ghi', 'Gohir.A12G057200' => 'ghi', 'Gohir.A13G178800' => 'ghi', 'Gohir.A13G211600' => 'ghi', 'Gohir.D03G099600' => 'ghi', 'Gohir.D05G064900' => 'ghi', 'Gohir.D07G037800' => 'ghi', 'Gohir.D08G032600' => 'ghi', 'Gohir.D08G096200' => 'ghi', 'Gohir.D12G056900' => 'ghi', 'Gohir.D13G186900' => 'ghi', 'Gohir.D13G215600' => 'ghi', 'Gorai.001G039500' => 'gra', 'Gorai.003G104600' => 'gra', 'Gorai.004G030300' => 'gra', 'Gorai.004G102000' => 'gra', 'Gorai.008G059900' => 'gra', 'Gorai.009G065600' => 'gra', 'Gorai.010G245200' => 'gra', 'Gorai.013G246000' => 'gra', 'GSVIVG01029107001' => 'vvi', 'GSVIVG01036037001' => 'vvi', 'GSVIVG01036499001' => 'vvi', 'HanXRQChr05g0137501' => 'han', 'HanXRQChr05g0157831' => 'han', 'HanXRQChr08g0236641' => 'han', 'HanXRQChr09g0263321' => 'han', 'HanXRQChr12g0358091' => 'han', 'HanXRQChr13g0387841' => 'han', 'HanXRQChr13g0410811' => 'han', 'HanXRQChr14g0448001' => 'han', 'HanXRQChr17g0547741' => 'han', 'Haze_14070' => 'cav', 'Haze_21368' => 'cav', 'Haze_21369' => 'cav', 'Haze_22137' => 'cav', 'Hma1.2p1_0588F.1_g184520' => 'hma', 'Hma1.2p1_0588F.1_g184530' => 'hma', 'Hma1.2p1_0790F.1_g218430' => 'hma', 'HPP92_005301' => 'vpl', 'HPP92_010481' => 'vpl', 'HPP92_015843' => 'vpl', 'HPP92_018522' => 'vpl', 'HPP92_022468' => 'vpl', 'HPP92_024370' => 'vpl', 'HPP92_024474' => 'vpl', 'HPP92_027908' => 'vpl', 'Hund09007' => 'sun', 'Hund16256' => 'sun', 'Hund26379' => 'sun', 'Lalb_Chr02g0158561' => 'lal', 'Lalb_Chr02g0158571' => 'lal', 'Lalb_Chr07g0180221' => 'lal', 'Lalb_Chr08g0244561' => 'lal', 'Lalb_Chr10g0092461' => 'lal', 'Lalb_Chr13g0300401' => 'lal', 'Lalb_Chr23g0268111' => 'lal', 'Lj1g0007222' => 'lja', 'Lj1g0011265' => 'lja', 'Lj1g0013658' => 'lja', 'Lj4A127T91' => 'lonja', 'Lj4g0015701' => 'lja', 'Lj5g0011349' => 'lja', 'Lj6g0008347' => 'lja', 'Lj7A741T44' => 'lonja', 'Lj9A690T27' => 'lonja', 'Lj9A735T61' => 'lonja', 'Lju361A13T17' => 'lonja', 'Lsat_1_v5_gn_2_86121' => 'lsa', 'Lsat_1_v5_gn_4_175001' => 'lsa', 'Lsat_1_v5_gn_5_51381' => 'lsa', 'Lsat_1_v5_gn_5_86540' => 'lsa', 'Lsat_1_v5_gn_8_66520' => 'lsa', 'Manes.01G024100' => 'mes', 'Manes.01G106200' => 'mes', 'Manes.02G062700' => 'mes', 'Manes.03G006000' => 'mes', 'Manes.06G028200' => 'mes', 'Manes.14G161500' => 'mes', 'Manes.16G133200' => 'mes', 'Mapoly0110s0028' => 'mpo', 'MBI04_g09524_MAGBIO' => 'mbi', 'MBI14_g16235_MAGBIO' => 'mbi', 'MBI14_g37766_MAGBIO' => 'mbi', 'MBI16_g00675_MAGBIO' => 'mbi', 'MD05G1218100' => 'mdo', 'MD08G1049600' => 'mdo', 'MD09G1079200' => 'mdo', 'MD13G1263800' => 'mdo', 'MD14G1194500' => 'mdo', 'MD15G1045000' => 'mdo', 'MD16G1148500' => 'mdo', 'MD16G1265000' => 'mdo', 'MD17G1069600' => 'mdo', 'Medtr1g013450' => 'mtr', 'Medtr3g034680' => 'mtr', 'Medtr3g105710' => 'mtr', 'Medtr4g128930' => 'mtr', 'Medtr7g018170' => 'mtr', 'MELO3C004050.2' => 'cme', 'MELO3C011317.2' => 'cme', 'MELO3C017500.2' => 'cme', 'MELO3C017501.2' => 'cme', 'MELO3C018930.2' => 'cme', 'Migut.A00403' => 'egut', 'Migut.E01434' => 'egut', 'Migut.H00566' => 'egut', 'Migut.J01445' => 'egut', 'Migut.K00262' => 'egut', 'MSTRG.11797' => 'ama', 'MSTRG.13953' => 'ama', 'MSTRG.15426' => 'ama', 'MSTRG.1621' => 'ama', 'MSTRG.19692' => 'ama', 'MSTRG.23844' => 'ama', 'MSTRG.26236' => 'ama', 'MSTRG.6192' => 'ama', 'Nitab4.5_0000244g0130' => 'nta', 'Nitab4.5_0000989g0080' => 'nta', 'Nitab4.5_0001110g0140' => 'nta', 'Nitab4.5_0001212g0030' => 'nta', 'Nitab4.5_0001982g0010' => 'nta', 'Nitab4.5_0002912g0030' => 'nta', 'Nitab4.5_0013324g0010' => 'nta', 'Nitab4.5_0013739g0010' => 'nta', 'Nn1g03394' => 'nnu', 'Nn2g10482' => 'nnu', 'Nn2g12633' => 'nnu', 'Nn3g17605' => 'nnu', 'Nn3g18761' => 'nnu', 'Nn3g21420' => 'nnu', 'Nn4g23607' => 'nnu', 'Nn4g24333' => 'nnu', 'Nn6g33902' => 'nnu', 'Nn7g36672' => 'nnu', 'Nn8g40062' => 'nnu', 'Nn8g40382' => 'nnu', 'Oeu007103.1' => 'oeu', 'Oeu008760.1' => 'oeu', 'Oeu014161.1' => 'oeu', 'Oeu020951.1' => 'oeu', 'Oeu020982.1' => 'oeu', 'Oeu032856.1' => 'oeu', 'Oeu033423.1' => 'oeu', 'Oeu033426.1' => 'oeu', 'Oeu048536.1' => 'oeu', 'Oeu054234.1' => 'oeu', 'Oeu054235.1' => 'oeu', 'Oeu058835.1' => 'oeu', 'Os02g0178100' => 'osa', 'Os02g0610500' => 'osa', 'Os06g0275000' => 'osa', 'Os06g0654900' => 'osa', 'Os07g0261200' => 'osa', 'Os08g0249000' => 'osa', 'Os09g0240200' => 'osa', 'Os10g0560400' => 'osa', 'Peaxi162Scf00020g01929' => 'pax', 'Peaxi162Scf00045g01824' => 'pax', 'Peaxi162Scf00459g00510' => 'pax', 'Peaxi162Scf00942g00122' => 'pax', 'PGR004G2821' => 'pgr', 'PGR031G1305' => 'pgr', 'PGR083G0534' => 'pgr', 'PGR102G0687' => 'pgr', 'PGR142G2031' => 'pgr', 'PGSC0003DMG400006387' => 'stu', 'PGSC0003DMG400026311' => 'stu', 'PGSC0003DMG400026690' => 'stu', 'PGSC0003DMG400027475' => 'stu', 'PGSC0003DMG400029365' => 'stu', 'PGSC0003DMG400042340' => 'stu', 'PGSC0003DMG401010056' => 'stu', 'PGSC0003DMG402010056' => 'stu', 'Phvul.001G137925' => 'pvu', 'Phvul.003G149000' => 'pvu', 'Phvul.004G046601' => 'pvu', 'Phvul.008G022800' => 'pvu', 'Phvul.008G022925' => 'pvu', 'Phvul.009G085300' => 'pvu', 'Potri.004G108320' => 'ptr', 'Potri.006G173600' => 'ptr', 'Potri.006G267700' => 'ptr', 'Potri.017G107500' => 'ptr', 'Potri.018G013800' => 'ptr', 'Potri.018G096084' => 'ptr', 'Pp3c11_6370' => 'ppa', 'Pp3c2_31580' => 'ppa', 'Pp3c7_25600' => 'ppa', 'Prupe.1G019200' => 'ppe', 'Prupe.1G093900' => 'ppe', 'Prupe.1G398700' => 'ppe', 'Prupe.3G245100' => 'ppe', 'Psat0s1849g0080' => 'psa', 'Psat3g193520' => 'psa', 'Psat5g032240' => 'psa', 'Psat6g025680' => 'psa', 'PSO017G3499' => 'pso', 'PSO017G4361' => 'pso', 'PSO063G7030' => 'pso', 'PSO170G4465' => 'pso', 'PSO478G2293' => 'pso', 'PSO782G2825' => 'pso', 'QL02p017987' => 'qlo', 'QL02p054412' => 'qlo', 'QL02p096683' => 'qlo', 'QL10p021690' => 'qlo', 'QL11p028990' => 'qlo', 'RcHm_v2.0_Chr2g0164091' => 'rch', 'RcHm_v2.0_Chr3g0493071' => 'rch', 'RcHm_v2.0_Chr4g0403841' => 'rch', 'RcHm_v2.0_Chr4g0429731' => 'rch', 'RcHm_v2.0_Chr4g0429741' => 'rch', 'RcHm_v2.0_Chr5g0033381' => 'rch', 'RcHm_v2.0_Chr5g0037591' => 'rch', 'RcHm_v2.0_Chr5g0068911' => 'rch', 'RcHm_v2.0_Chr5g0068921' => 'rch', 'RcHm_v2.0_Chr6g0299051' => 'rch', 'Rhsim01G0008900' => 'rsi', 'Rhsim01G0010700' => 'rsi', 'Rhsim08G0079200' => 'rsi', 'Sabra04G0074100' => 'sbr', 'Sabra06G0133100' => 'sbr', 'Sabra06G0209900' => 'sbr', 'Sabra17G0090300' => 'sbr', 'Sabra18G0082900' => 'sbr', 'SalBow1G0623' => 'sbo', 'SalBow4G1791' => 'sbo', 'SalBow8G1524' => 'sbo', 'SalBow8G2847' => 'sbo', 'SalBow8G2867' => 'sbo', 'Sc09g0010800' => 'sci', 'Sc10g0000420' => 'sci', 'Sc18g0003360' => 'sci', 'Sed0001333' => 'sed', 'Sed0010033' => 'sed', 'Sed0014320' => 'sed', 'Sed0016018' => 'sed', 'Sed0016192' => 'sed', 'Sed0023552' => 'sed', 'SEGI_36540' => 'sgi', 'SGA_v2.0_scaffold169G38594' => 'sas', 'SGA_v2.0_scaffold193G40690' => 'sas', 'SGA_v2.0_scaffold27G11641' => 'sas', 'SGA_v2.0_scaffold36G14554' => 'sas', 'SGA_v2.0_scaffold52G19040' => 'sas', 'SGA_v2.0_scaffold66G22484' => 'sas', 'SGA_v2.0_scaffold69G23285' => 'sas', 'SMO141G0036' => 'smo', 'SMO141G0220' => 'smo', 'SMO259G0029' => 'smo', 'Solyc02g089500.4' => 'sly', 'Solyc02g089520.2' => 'sly', 'Solyc02g089540.3' => 'sly', 'Solyc07g006630.4' => 'sly', 'Solyc08g006530.4' => 'sly', 'Solyc11g150117.1' => 'sly', 'Solyc12g096500.2' => 'sly', 'Sopen02g034240' => 'spe', 'Sopen02g034250' => 'spe', 'Sopen02g034260' => 'spe', 'Sopen07g002740' => 'spe', 'Sopen08g002490' => 'spe', 'Sopen12g032330' => 'spe', 'Sp2g22520' => 'spa', 'Sp3g01430' => 'spa', 'Sp4g03750' => 'spa', 'Sp6g19350' => 'spa', 'Sp6g28260' => 'spa', 'Sp6g28270' => 'spa', 'TAR374G1713' => 'tar', 'TAR383G0207' => 'tar', 'TAR622G0041' => 'tar', 'TAR625G1493' => 'tar', 'TAR629G0884' => 'tar', 'TAR629G1741' => 'tar', 'THA.LOC104802991' => 'tha', 'THA.LOC104803328' => 'tha', 'THA.LOC104811812' => 'tha', 'THA.LOC104813531' => 'tha', 'THA.LOC104814980' => 'tha', 'THA.LOC104817807' => 'tha', 'THA.LOC104819945' => 'tha', 'Thecc.03G112600' => 'tca', 'Thecc.04G113300' => 'tca', 'Thecc.09G011100' => 'tca', 'Thecc.09G165200' => 'tca', 'Thhalv10000258m.g' => 'esa', 'Thhalv10004744m.g' => 'esa', 'Thhalv10013895m.g' => 'esa', 'Thhalv10013919m.g' => 'esa', 'Thhalv10015486m.g' => 'esa', 'TPR.G1834' => 'tpr', 'TPR.G3285' => 'tpr', 'TPR.G38832' => 'tpr', 'TPR.G5295' => 'tpr', 'TWI32G0160' => 'twi', 'TWI32G1078' => 'twi', 'TWI34G0834' => 'twi', 'TWI34G1496' => 'twi', 'TWI34G1589' => 'twi', 'TWI60G0462' => 'twi', 'TWI63G0975' => 'twi', 'unitig_0.g2184' => 'ugi', 'unitig_0.g2185' => 'ugi', 'unitig_0.g2680' => 'ugi', 'unitig_0.g568' => 'ugi', 'unitig_32.g10760' => 'ugi', 'unitig_747.g21386' => 'ugi', 'unitig_748.g7206' => 'ugi', 'unitig_748.g8412' => 'ugi', 'vmacro06968' => 'vma', 'vmacro13095' => 'vma', 'vmacro18110' => 'vma', 'VMungo0464G0677' => 'vmu', 'VMungo1215G1382' => 'vmu', 'VMungo1309G0098' => 'vmu', 'VMungo1383G0553' => 'vmu', 'Zm00001eb023220' => 'zma', 'Zm00001eb078490' => 'zma', 'Zm00001eb170920' => 'zma', 'Zm00001eb184340' => 'zma', 'Zm00001eb233790' => 'zma', 'Zm00001eb380460' => 'zma', 'Zm00001eb389540' => 'zma', 'Zm00001eb391230' => 'zma', 'Zm00001eb418700' => 'zma', 'Zm00001eb425790' => 'zma' ) $gf_id = 'HOM05D001051' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001051' ) $data_identifier = 'HOM05D001051' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 22, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 2, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 3, 'cqu' => (int) 6, 'bca' => (int) 20, 'bol' => (int) 11, 'bra' => (int) 10, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 8, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 4, 'camsi' => (int) 5, 'dca' => (int) 8, 'din' => (int) 7, 'dzi' => (int) 11, 'eca' => (int) 6, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 10, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 16, 'gra' => (int) 8, 'vvi' => (int) 3, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 8, 'sun' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 6, 'lonja' => (int) 5, 'lsa' => (int) 5, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 5, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 12, 'oeu' => (int) 12, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 5, 'rch' => (int) 10, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 1, 'sas' => (int) 7, 'smo' => (int) 3, 'sly' => (int) 7, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 7, 'ugi' => (int) 8, 'vma' => (int) 3, 'vmu' => (int) 4, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb425790' $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